Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: XM_021431736.1

Parameters: 2 7 7 80 10 50 1000

Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000

Length: 8811
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.32


Found at i:52 original size:17 final size:17

Alignment explanation


    Indices: 32--81  Score: 63
    Period size: 16  Copynumber: 3.1  Consensus size: 17

         22 TTCTCCACTT

                             
         32 CTCTCTCTTTTCTCTTC
          1 CTCTCTCTTTTCTCTTC

                             
         49 CTCT-TCTTTT-TC-T-
          1 CTCTCTCTTTTCTCTTC

                              
         62 CTCTCTCTTTCTCTCTTC
          1 CTCTCTCTTT-TCTCTTC

              
         80 CT
          1 CT

         82 TTCTTTCTTT


Statistics
Matches: 28,  Mismatches: 0, Indels: 9
        0.76            0.00        0.24

Matches are distributed among these distances:
  13    4  0.14
  14    6  0.21
  15    3  0.11
  16    8  0.29
  17    5  0.18
  18    2  0.07

ACGTcount: A:0.00, C:0.40, G:0.00, T:0.60


Consensus pattern (17 bp):   
CTCTCTCTTTTCTCTTC

Found at i:54 original size:30 final size:31

Alignment explanation


    Indices: 20--85  Score: 75
    Period size: 30  Copynumber: 2.2  Consensus size: 31

         10 TATTACAATT

                                            
         20 TCTTCTCCACT-TCTCTCTCTTT-TCTCTTCC
          1 TCTTCT-CACTCTCTCTCTCTTTCTCTCTTCC

                  ***                      
         50 TCTTCTTTTTCTCTCTCTCTTTCTCTCTTCC
          1 TCTTCTCACTCTCTCTCTCTTTCTCTCTTCC

                  
         81 T-TTCT
          1 TCTTCT

         86 TTCTTTGATC


Statistics
Matches: 31,  Mismatches: 3, Indels: 4
        0.82            0.08        0.11

Matches are distributed among these distances:
  29    1  0.03
  30   21  0.68
  31    9  0.29

ACGTcount: A:0.02, C:0.39, G:0.00, T:0.59


Consensus pattern (31 bp):   
TCTTCTCACTCTCTCTCTCTTTCTCTCTTCC

Found at i:83 original size:12 final size:13

Alignment explanation


    Indices: 33--90  Score: 59
    Period size: 12  Copynumber: 4.6  Consensus size: 13

         23 TCTCCACTTC

                    *     
         33 TCTCTCTTTTCTCT
          1 TCTCTCTTCTCT-T

                      *  
         47 TC-CTCTTCTTTT
          1 TCTCTCTTCTCTT

                         
         59 TCTCTC-TCTCTT
          1 TCTCTCTTCTCTT

                         
         71 TCTCTCTTC-CTT
          1 TCTCTCTTCTCTT

               *    
         83 TCTTTCTT
          1 TCTCTCTT

         91 TGATCTCATC


Statistics
Matches: 38,  Mismatches: 4, Indels: 6
        0.79            0.08        0.12

Matches are distributed among these distances:
  12   24  0.63
  13   12  0.32
  14    2  0.05

ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64


Consensus pattern (13 bp):   
TCTCTCTTCTCTT

Found at i:86 original size:30 final size:30

Alignment explanation


    Indices: 31--87  Score: 98
    Period size: 30  Copynumber: 1.9  Consensus size: 30

         21 CTTCTCCACT

                                          
         31 TCTCTCTCTTTTCTCTTCCTCTTCTTTTTC
          1 TCTCTCTCTTTTCTCTTCCTCTTCTTTTTC

                                        
         61 TCTCTCTCTTTCTCTCTTCCT-TTCTTT
          1 TCTCTCTCTTT-TCTCTTCCTCTTCTTT

         88 CTTTGATCTC


Statistics
Matches: 26,  Mismatches: 0, Indels: 2
        0.93            0.00        0.07

Matches are distributed among these distances:
  30   17  0.65
  31    9  0.35

ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63


Consensus pattern (30 bp):   
TCTCTCTCTTTTCTCTTCCTCTTCTTTTTC
Done.